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Target-dependent RNA polymerase as universal platform for gene expression control in response to intracellular molecules

Author

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  • Shodai Komatsu

    (Kyoto University, 53 Kawahara-cho, Shogoin, Sakyo-ku
    Kyoto University, Yoshida-Konoe-cho, Sakyo-ku)

  • Hirohisa Ohno

    (Kyoto University, 53 Kawahara-cho, Shogoin, Sakyo-ku)

  • Hirohide Saito

    (Kyoto University, 53 Kawahara-cho, Shogoin, Sakyo-ku
    Kyoto University, Yoshida-Konoe-cho, Sakyo-ku)

Abstract

Controlling gene expression in response to specific molecules is an essential technique for regulating cellular functions. However, current platforms with transcription and translation regulators have a limited number of detectable molecules to induce gene expression. Here to address these issues, we present a Target-dependent RNA polymerase (TdRNAP) that can induce RNA transcription in response to the intracellular target specifically recognized by single antibody. By substituting the fused antibody, we demonstrate that TdRNAPs respond to a wide variety of molecules, including peptides, proteins, RNA, and small molecules, and produce desired transcripts in human cells. Furthermore, we show that multiple TdRNAPs can construct orthogonal and multilayer genetic circuits. Finally, we apply TdRNAP to achieve cell-specific genome editing that is autonomously triggered by detecting the target gene product. TdRNAP can expand the molecular variety for controlling gene expression and provide the genetic toolbox for bioengineering and future therapeutic applications.

Suggested Citation

  • Shodai Komatsu & Hirohisa Ohno & Hirohide Saito, 2023. "Target-dependent RNA polymerase as universal platform for gene expression control in response to intracellular molecules," Nature Communications, Nature, vol. 14(1), pages 1-11, December.
    • Handle: RePEc:nat:natcom:v:14:y:2023:i:1:d:10.1038_s41467-023-42802-5
    DOI: 10.1038/s41467-023-42802-5
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    References listed on IDEAS

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    1. Robert A. Langan & Scott E. Boyken & Andrew H. Ng & Jennifer A. Samson & Galen Dods & Alexandra M. Westbrook & Taylor H. Nguyen & Marc J. Lajoie & Zibo Chen & Stephanie Berger & Vikram Khipple Mulliga, 2019. "De novo design of bioactive protein switches," Nature, Nature, vol. 572(7768), pages 205-210, August.
    2. Federica Cella & Liliana Wroblewska & Ron Weiss & Velia Siciliano, 2018. "Engineering protein-protein devices for multilayered regulation of mRNA translation using orthogonal proteases in mammalian cells," Nature Communications, Nature, vol. 9(1), pages 1-9, December.
    3. Brent Townshend & Joy S. Xiang & Gabriel Manzanarez & Eric J. Hayden & Christina D. Smolke, 2021. "A multiplexed, automated evolution pipeline enables scalable discovery and characterization of biosensors," Nature Communications, Nature, vol. 12(1), pages 1-15, December.
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